diff options
Diffstat (limited to 'pkgs/development')
21 files changed, 219 insertions, 112 deletions
diff --git a/pkgs/development/compilers/ghc/8.0.2.nix b/pkgs/development/compilers/ghc/8.0.2.nix index b2ae92e02c6..5979eba3e10 100644 --- a/pkgs/development/compilers/ghc/8.0.2.nix +++ b/pkgs/development/compilers/ghc/8.0.2.nix @@ -13,12 +13,12 @@ let }); in stdenv.mkDerivation rec { - version = "8.0.1.20161213"; + version = "8.0.2"; name = "ghc-${version}"; src = fetchurl { - url = "https://downloads.haskell.org/~ghc/8.0.2-rc2/${name}-src.tar.xz"; - sha256 = "0l1arhbh3rbs011f0y4pgc35yn07x3hz6lfqlvqbwn96f8ff5529"; + url = "https://downloads.haskell.org/~ghc/8.0.2/${name}-src.tar.xz"; + sha256 = "1c8qc4fhkycynk4g1f9hvk53dj6a1vvqi6bklqznns6hw59m8qhi"; }; patches = [] ++ stdenv.lib.optional stdenv.isLinux ./ghc-no-madv-free.patch; diff --git a/pkgs/development/compilers/ghc/head.nix b/pkgs/development/compilers/ghc/head.nix index 081f554e06b..971365eda48 100644 --- a/pkgs/development/compilers/ghc/head.nix +++ b/pkgs/development/compilers/ghc/head.nix @@ -8,8 +8,12 @@ let commonBuildInputs = [ ghc perl autoconf automake happy alex python3 ]; version = "8.1.20170106"; + rev = "b4f2afe70ddbd0576b4eba3f82ba1ddc52e9b3bd"; commonPreConfigure = '' + echo ${version} >VERSION + echo ${rev} >GIT_COMMIT_ID + ./boot sed -i -e 's|-isysroot /Developer/SDKs/MacOSX10.5.sdk||' configure '' + stdenv.lib.optionalString (!stdenv.isDarwin) '' export NIX_LDFLAGS="$NIX_LDFLAGS -rpath $out/lib/ghc-${version}" @@ -17,9 +21,8 @@ let export NIX_LDFLAGS+=" -no_dtrace_dof" ''; in stdenv.mkDerivation (rec { - inherit version; + inherit version rev; name = "ghc-${version}"; - rev = "b4f2afe70ddbd0576b4eba3f82ba1ddc52e9b3bd"; src = fetchgit { url = "git://git.haskell.org/ghc.git"; @@ -29,11 +32,7 @@ in stdenv.mkDerivation (rec { postPatch = "patchShebangs ."; - preConfigure = '' - echo ${version} >VERSION - echo ${rev} >GIT_COMMIT_ID - ./boot - '' + commonPreConfigure ; + preConfigure = commonPreConfigure; buildInputs = commonBuildInputs; diff --git a/pkgs/development/compilers/rust/nightlyBin.nix b/pkgs/development/compilers/rust/nightlyBin.nix index 6f7cca9aff2..bac35c790d0 100644 --- a/pkgs/development/compilers/rust/nightlyBin.nix +++ b/pkgs/development/compilers/rust/nightlyBin.nix @@ -49,6 +49,9 @@ rec { patchelf \ --set-interpreter $(cat $NIX_CC/nix-support/dynamic-linker) \ "$out/bin/rustc" + patchelf \ + --set-interpreter $(cat $NIX_CC/nix-support/dynamic-linker) \ + "$out/bin/rustdoc" ''} ''; diff --git a/pkgs/development/haskell-modules/configuration-ghc-head.nix b/pkgs/development/haskell-modules/configuration-ghc-head.nix index a2b6058b166..f093c0e427e 100644 --- a/pkgs/development/haskell-modules/configuration-ghc-head.nix +++ b/pkgs/development/haskell-modules/configuration-ghc-head.nix @@ -86,4 +86,11 @@ self: super: { # Won't work with LLVM 3.5. llvm-general = markBrokenVersion "3.4.5.3" super.llvm-general; + # A bunch of jailbreaks due to 'base' bump + old-locale = doJailbreak super.old-locale; + primitive = doJailbreak super.primitive; + test-framework = doJailbreak super.test-framework; + atomic-primops = doJailbreak (appendPatch super.atomic-primops ./patches/atomic-primops-Cabal-1.25.patch); + hashable = doJailbreak super.hashable; + stm = doJailbreak super.stm; } diff --git a/pkgs/development/haskell-modules/hackage-packages.nix b/pkgs/development/haskell-modules/hackage-packages.nix index 2528b8a8bef..1922fb3efc3 100644 --- a/pkgs/development/haskell-modules/hackage-packages.nix +++ b/pkgs/development/haskell-modules/hackage-packages.nix @@ -91117,8 +91117,8 @@ self: { ({ mkDerivation, base, hledger-lib, text, time }: mkDerivation { pname = "hledger-diff"; - version = "0.2.0.6"; - sha256 = "0ef38d60055fb632f3a686b5ce8aee0af5637e51b17d4c5a27764dd485c52b75"; + version = "0.2.0.7"; + sha256 = "1x7ngm0h9hsbf4p8vx1h4z1w9hlqkqfa39v2dvmlxrcx6rs8dzsl"; isLibrary = false; isExecutable = true; executableHaskellDepends = [ base hledger-lib text time ]; @@ -106695,8 +106695,8 @@ self: { ({ mkDerivation, base, Cabal }: mkDerivation { pname = "jailbreak-cabal"; - version = "1.3.1"; - sha256 = "610d8dbd04281eee3d5da05c9eef45bfd1a1ddca20dfe54f283e15ddf6d5c235"; + version = "1.3.2"; + sha256 = "1x2h54sx4ycik34q8f9g698xc2b7fai18918cd08qx7w7ny8nai1"; isLibrary = false; isExecutable = true; executableHaskellDepends = [ base Cabal ]; diff --git a/pkgs/development/haskell-modules/patches/atomic-primops-Cabal-1.25.patch b/pkgs/development/haskell-modules/patches/atomic-primops-Cabal-1.25.patch new file mode 100644 index 00000000000..712bd53092f --- /dev/null +++ b/pkgs/development/haskell-modules/patches/atomic-primops-Cabal-1.25.patch @@ -0,0 +1,37 @@ +diff --git a/Setup.hs b/Setup.hs +index ddf5a02..7ad1f26 100644 +--- a/Setup.hs ++++ b/Setup.hs +@@ -1,4 +1,4 @@ +- ++{-# LANGUAGE CPP #-} + import Control.Monad (when) + import Language.Haskell.TH + import Distribution.Simple (defaultMainWithHooks, simpleUserHooks, UserHooks(postConf), Args) +@@ -6,14 +6,25 @@ import Distribution.Simple.Utils (cabalVersion) + import Distribution.Simple.LocalBuildInfo + import Distribution.Simple.Setup (ConfigFlags) + import Distribution.Version (Version(..)) ++#if MIN_VERSION_Cabal(1,25,0) ++import Distribution.Version (mkVersion) ++#endif + import Distribution.PackageDescription (PackageDescription) + import Debug.Trace + ++#if MIN_VERSION_Cabal(1,25,0) ++versionBranch :: Version -> Version ++versionBranch = id ++#else ++mkVersion :: [Int] -> Version ++mkVersion vs = Version vs [] ++#endif ++ + -- I couldn't figure out a way to do this check from the cabal file, so we drop down + -- here to do it instead: + checkGoodVersion :: IO () + checkGoodVersion = +- if cabalVersion >= Version [1,17,0] [] ++ if cabalVersion >= mkVersion [1,17,0] + then putStrLn (" [Setup.hs] This version of Cabal is ok for profiling: "++show cabalVersion) + else error (" [Setup.hs] This package should not be used in profiling mode with cabal version "++ + show (versionBranch cabalVersion)++" < 1.17.0\n"++ diff --git a/pkgs/development/libraries/cairo/default.nix b/pkgs/development/libraries/cairo/default.nix index 5d201c52312..5b40f27674d 100644 --- a/pkgs/development/libraries/cairo/default.nix +++ b/pkgs/development/libraries/cairo/default.nix @@ -47,7 +47,7 @@ stdenv.mkDerivation rec { libiconv ] ++ libintlOrEmpty ++ optionals stdenv.isDarwin (with darwin.apple_sdk.frameworks; [ CoreGraphics - ApplicationServices + CoreText Carbon ]); @@ -56,6 +56,9 @@ stdenv.mkDerivation rec { ++ optionals xcbSupport [ libxcb xcbutil ] ++ optional gobjectSupport glib ++ optional glSupport mesa_noglu + ++ optionals stdenv.isDarwin (with darwin.apple_sdk.frameworks; [ + ApplicationServices + ]) ; # TODO: maybe liblzo but what would it be for here? configureFlags = if stdenv.isDarwin then [ diff --git a/pkgs/development/libraries/cpp-ipfs-api/default.nix b/pkgs/development/libraries/cpp-ipfs-api/default.nix index 2c9d36154a2..c13b32a67b0 100644 --- a/pkgs/development/libraries/cpp-ipfs-api/default.nix +++ b/pkgs/development/libraries/cpp-ipfs-api/default.nix @@ -2,13 +2,13 @@ stdenv.mkDerivation rec { name = "cpp-ipfs-api-${version}"; - version = "2016-11-09"; + version = "2017-01-04"; src = fetchFromGitHub { owner = "vasild"; repo = "cpp-ipfs-api"; - rev = "46e473e49ede4fd829235f1d4930754d5356a747"; - sha256 = "10c5hmg9857zb0fp262ca4a42gq9iqdyqz7f975cp3qs70x12q08"; + rev = "96a890f4518665a56581a2a52311eaa65928eac8"; + sha256 = "1z6gbd7npg4pd9wmdyzcp9h12sg84d7a43c69pp4lzqkyqg8pz1g"; }; buildInputs = [ cmake curl ]; diff --git a/pkgs/development/libraries/gtk+/2.x.nix b/pkgs/development/libraries/gtk+/2.x.nix index ba12b4eea93..bcbbecd242d 100644 --- a/pkgs/development/libraries/gtk+/2.x.nix +++ b/pkgs/development/libraries/gtk+/2.x.nix @@ -2,11 +2,15 @@ , gdk_pixbuf, libintlOrEmpty, xlibsWrapper , xineramaSupport ? stdenv.isLinux , cupsSupport ? true, cups ? null +, gdktarget ? "x11" +, AppKit, Cocoa }: assert xineramaSupport -> xorg.libXinerama != null; assert cupsSupport -> cups != null; +with stdenv.lib; + stdenv.mkDerivation rec { name = "gtk+-2.24.31"; @@ -20,7 +24,7 @@ stdenv.mkDerivation rec { enableParallelBuilding = true; - NIX_CFLAGS_COMPILE = stdenv.lib.optionalString (libintlOrEmpty != []) "-lintl"; + NIX_CFLAGS_COMPILE = optionalString (libintlOrEmpty != []) "-lintl"; setupHook = ./setup-hook.sh; @@ -28,7 +32,7 @@ stdenv.mkDerivation rec { patches = [ ./2.0-immodules.cache.patch ]; - propagatedBuildInputs = with xorg; with stdenv.lib; + propagatedBuildInputs = with xorg; [ glib cairo pango gdk_pixbuf atk ] ++ optionals (stdenv.isLinux || stdenv.isDarwin) [ libXrandr libXrender libXcomposite libXi libXcursor @@ -36,11 +40,13 @@ stdenv.mkDerivation rec { ++ optionals stdenv.isDarwin [ xlibsWrapper libXdamage ] ++ libintlOrEmpty ++ optional xineramaSupport libXinerama - ++ optionals cupsSupport [ cups ]; + ++ optionals cupsSupport [ cups ] + ++ optionals (gdktarget == "quartz") [ AppKit Cocoa ]; configureFlags = [ + "--with-gdktarget=${gdktarget}" "--with-xinput=yes" - ] ++ stdenv.lib.optionals stdenv.isDarwin [ + ] ++ optionals stdenv.isDarwin [ "--disable-glibtest" "--disable-introspection" "--disable-visibility" @@ -57,9 +63,10 @@ stdenv.mkDerivation rec { rm $out/lib/gtk-2.0/2.10.0/immodules.cache $out/bin/gtk-query-immodules-2.0 $out/lib/gtk-2.0/2.10.0/immodules/*.so > $out/lib/gtk-2.0/2.10.0/immodules.cache ''; # workaround for bug of nix-mode for Emacs */ ''; + inherit gdktarget; }; - meta = with stdenv.lib; { + meta = { description = "A multi-platform toolkit for creating graphical user interfaces"; homepage = http://www.gtk.org/; license = licenses.lgpl2Plus; diff --git a/pkgs/development/libraries/gtk-mac-integration/default.nix b/pkgs/development/libraries/gtk-mac-integration/default.nix new file mode 100644 index 00000000000..30ac8f2fe28 --- /dev/null +++ b/pkgs/development/libraries/gtk-mac-integration/default.nix @@ -0,0 +1,30 @@ +{ stdenv, lib, fetchFromGitHub, autoreconfHook, pkgconfig, glib, gtk_doc, gtk }: + +stdenv.mkDerivation rec { + name = "gtk-mac-integration-2.0.8"; + + src = fetchFromGitHub { + owner = "GNOME"; + repo = "gtk-mac-integration"; + rev = "79e708870cdeea24ecdb036c77b4630104ae1776"; + sha256 = "1fbhnvj0rqc3089ypvgnpkp6ad2rr37v5qk38008dgamb9h7f3qs"; + }; + + nativeBuildInputs = [ autoreconfHook pkgconfig gtk_doc ]; + buildInputs = [ glib gtk ]; + + preAutoreconf = '' + gtkdocize + ''; + + meta = with lib; { + description = "Provides integration for Gtk+ applications into the Mac desktop"; + + license = licenses.lgpl21; + + homepage = https://wiki.gnome.org/Projects/GTK+/OSX/Integration; + + maintainers = [ maintainers.matthewbauer ]; + platforms = platforms.darwin; + }; +} diff --git a/pkgs/development/libraries/ldns/default.nix b/pkgs/development/libraries/ldns/default.nix index 883625e551a..c35cc588314 100644 --- a/pkgs/development/libraries/ldns/default.nix +++ b/pkgs/development/libraries/ldns/default.nix @@ -1,25 +1,26 @@ {stdenv, fetchurl, openssl, perl}: stdenv.mkDerivation rec { - name = "ldns-1.6.17"; + pname = "ldns"; + version = "1.7.0"; + + name = "${pname}-${version}"; src = fetchurl { - url = "http://www.nlnetlabs.nl/downloads/ldns/${name}.tar.gz"; - sha256 = "1kf8pkwhcssvgzhh6ha1pjjiziwvwmfaali7kaafh6118mcy124b"; + url = "https://www.nlnetlabs.nl/downloads/ldns/${name}.tar.gz"; + sha1 = "ceeeccf8a27e61a854762737f6ee02f44662c1b8"; }; - outputs = [ "out" "dev" ]; - - patches = [ ./perl-5.22-compat.patch ]; - - postPatch = '' + patchPhase = '' patchShebangs doc/doxyparse.pl ''; + outputs = [ "out" "dev" ]; + nativeBuildInputs = [ perl ]; buildInputs = [ openssl ]; - configureFlags = [ "--with-ssl=${openssl.dev}" "--with-drill" ]; + configureFlags = [ "--with-ssl=${openssl.dev}" "--with-drill"]; postInstall = '' moveToOutput "bin/ldns-config" "$dev" diff --git a/pkgs/development/libraries/ldns/perl-5.22-compat.patch b/pkgs/development/libraries/ldns/perl-5.22-compat.patch deleted file mode 100644 index ddf711cef5d..00000000000 --- a/pkgs/development/libraries/ldns/perl-5.22-compat.patch +++ /dev/null @@ -1,12 +0,0 @@ -diff -Naur old/doc/doxyparse.pl new/doc/doxyparse.pl ---- old/doc/doxyparse.pl 2014-01-11 06:04:41.000000000 +0900 -+++ new/doc/doxyparse.pl 2015-08-08 22:29:34.216889652 +0900 -@@ -273,7 +273,7 @@ - - print MAN $MAN_MIDDLE; - -- if (defined(@$also)) { -+ if (@$also) { - print MAN "\n.SH SEE ALSO\n\\fI"; - print MAN join "\\fR, \\fI", @$also; - print MAN "\\fR.\nAnd "; diff --git a/pkgs/development/libraries/libpng/12.nix b/pkgs/development/libraries/libpng/12.nix index 8e17c44fa63..b3f7f96e936 100644 --- a/pkgs/development/libraries/libpng/12.nix +++ b/pkgs/development/libraries/libpng/12.nix @@ -3,11 +3,11 @@ assert !(stdenv ? cross) -> zlib != null; stdenv.mkDerivation rec { - name = "libpng-1.2.56"; + name = "libpng-1.2.57"; src = fetchurl { url = "mirror://sourceforge/libpng/${name}.tar.xz"; - sha256 = "1ghd03p353x0vi4dk83n1nlldg11w7vqdk3f99rkgfb82ic59ki4"; + sha256 = "1n2lrzjkm5jhfg2bs10q398lkwbbx742fi27zgdgx0x23zhj0ihg"; }; outputs = [ "out" "dev" "man" ]; diff --git a/pkgs/development/libraries/libpqxx/default.nix b/pkgs/development/libraries/libpqxx/default.nix index e8a80497de3..51cb1c48e54 100644 --- a/pkgs/development/libraries/libpqxx/default.nix +++ b/pkgs/development/libraries/libpqxx/default.nix @@ -1,4 +1,4 @@ -{ lib, stdenv, fetchurl, postgresql, python2 }: +{ lib, stdenv, fetchurl, postgresql, python2, gnused }: stdenv.mkDerivation rec { name = "libpqxx-4.0.1"; @@ -8,7 +8,7 @@ stdenv.mkDerivation rec { sha256 = "0f6wxspp6rx12fkasanb0z2g2gc8dhcfwnxagx8wwqbpg6ifsz09"; }; - buildInputs = [ postgresql python2 ]; + buildInputs = [ postgresql python2 gnused ]; preConfigure = '' patchShebangs . diff --git a/pkgs/development/libraries/libtermkey/default.nix b/pkgs/development/libraries/libtermkey/default.nix index 43c8292a200..97bc98b22d8 100644 --- a/pkgs/development/libraries/libtermkey/default.nix +++ b/pkgs/development/libraries/libtermkey/default.nix @@ -3,11 +3,11 @@ stdenv.mkDerivation rec { name = "libtermkey-${version}"; - version = "0.18"; + version = "0.19"; src = fetchzip { url = "http://www.leonerd.org.uk/code/libtermkey/libtermkey-${version}.tar.gz"; - sha256 = "0a0ih1a114phzmyq6jzgbp03x97463fwvrp1cgnl26awqw3f8sbf"; + sha256 = "0v85h0zacd5lqwkykl2ms4009x8mfidzb6jr4dsq4gh7kwm54w56"; }; makeFlags = [ "PREFIX=$(out)" ] diff --git a/pkgs/development/libraries/libuv/default.nix b/pkgs/development/libraries/libuv/default.nix index fd422a514ef..2b062f58b24 100644 --- a/pkgs/development/libraries/libuv/default.nix +++ b/pkgs/development/libraries/libuv/default.nix @@ -16,6 +16,7 @@ stdenv.mkDerivation rec { toDisable = [ "getnameinfo_basic" # probably network-dependent "spawn_setuid_fails" "spawn_setgid_fails" "fs_chown" # user namespaces + "getaddrinfo_fail" "getaddrinfo_fail_sync" ]; tdRegexp = lib.concatStringsSep "\\|" toDisable; in lib.optionalString doCheck '' @@ -33,8 +34,6 @@ stdenv.mkDerivation rec { doCheck = true; - crossAttrs.doCheck = false; - meta = with lib; { description = "A multi-platform support library with a focus on asynchronous I/O"; homepage = https://github.com/libuv/libuv; diff --git a/pkgs/development/libraries/openjpeg/2.1.nix b/pkgs/development/libraries/openjpeg/2.1.nix index 9e3c4473b31..ae8710e58a2 100644 --- a/pkgs/development/libraries/openjpeg/2.1.nix +++ b/pkgs/development/libraries/openjpeg/2.1.nix @@ -1,4 +1,4 @@ -{ callPackage, ... } @ args: +{ callPackage, fetchpatch, ... } @ args: callPackage ./generic.nix (args // rec { version = "2.1.2"; @@ -12,5 +12,26 @@ callPackage ./generic.nix (args // rec { # Put in our source code to make sure we don't lose it, since that # referenced commit is someone else's fork, and not actually up-stream. ./CVE-2016-9580-and-CVE-2016-9581.patch + + (fetchpatch { + url = "https://bugzilla.suse.com/attachment.cgi?id=707359&action=diff&context=patch&collapsed=&headers=1&format=raw"; + name = "CVE-2016-9112.patch"; + sha256 = "18hqx73wdzfybr5n5k6pzhbhdlmawiqbjci8n82zykxiyfgp18pd"; + }) + (fetchpatch { + url = "https://bugzilla.suse.com/attachment.cgi?id=707354&action=diff&context=patch&collapsed=&headers=1&format=raw"; + name = "CVE-2016-9114.patch"; + sha256 = "0qam3arw9kdbh4501xim2pyldl708dnpyjwvjmwc9gc7hcq4gfi3"; + }) + (fetchpatch { + url = "https://bugzilla.suse.com/attachment.cgi?id=707356&action=diff&context=patch&collapsed=&headers=1&format=raw"; + name = "CVE-2016-9116.patch"; + sha256 = "0yyb3pxqi5sr44a48bacngzp206j4z49lzkg6hbkz1nra9na61a3"; + }) + (fetchpatch { + url = "https://bugzilla.suse.com/attachment.cgi?id=707358&action=diff&context=patch&collapsed=&headers=1&format=raw"; + name = "CVE-2016-9118.patch"; + sha256 = "125n8bmh07y7697s0y82ypb39rxgj0bdn8rcywbvamscagwg2wy9"; + }) ]; }) diff --git a/pkgs/development/libraries/pango/default.nix b/pkgs/development/libraries/pango/default.nix index f39fc2afe7d..22cf7be84d0 100644 --- a/pkgs/development/libraries/pango/default.nix +++ b/pkgs/development/libraries/pango/default.nix @@ -1,5 +1,5 @@ { stdenv, fetchurl, pkgconfig, libXft, cairo, harfbuzz -, libintlOrEmpty, gobjectIntrospection +, libintlOrEmpty, gobjectIntrospection, darwin }: with stdenv.lib; @@ -19,7 +19,12 @@ stdenv.mkDerivation rec { outputs = [ "bin" "dev" "out" "devdoc" ]; buildInputs = [ gobjectIntrospection ]; - nativeBuildInputs = [ pkgconfig ]; + nativeBuildInputs = [ pkgconfig ] + ++ optionals stdenv.isDarwin (with darwin.apple_sdk.frameworks; [ + Carbon + CoreGraphics + CoreText + ]); propagatedBuildInputs = [ cairo harfbuzz libXft ] ++ libintlOrEmpty; enableParallelBuilding = true; @@ -48,6 +53,6 @@ stdenv.mkDerivation rec { license = licenses.lgpl2Plus; maintainers = with maintainers; [ raskin urkud ]; - platforms = with platforms; linux ++ darwin; + platforms = platforms.linux ++ platforms.darwin; }; } diff --git a/pkgs/development/python-modules/discordpy/default.nix b/pkgs/development/python-modules/discordpy/default.nix index cf01ec835a7..6025956261e 100644 --- a/pkgs/development/python-modules/discordpy/default.nix +++ b/pkgs/development/python-modules/discordpy/default.nix @@ -11,13 +11,13 @@ let pname = "discord.py"; - version = "0.15.1"; + version = "0.16.0"; in buildPythonPackage rec { name = "${pname}-${version}"; src = fetchurl { url = "mirror://pypi/${builtins.substring 0 1 pname}/${pname}/${name}.tar.gz"; - sha256 = "01lgidvnwwva1i65853gaplamllym2nsk0jis2r6f1rzbamgk1yj"; + sha256 = "0r3qqvx36vywjyjk1nh11ymmr8y81sb45nk63665kcjagx8qnmfx"; }; propagatedBuildInputs = [ asyncio aiohttp websockets pynacl ]; diff --git a/pkgs/development/python-modules/pygtk/default.nix b/pkgs/development/python-modules/pygtk/default.nix index 7d0896c1fb8..0940ef00ac9 100644 --- a/pkgs/development/python-modules/pygtk/default.nix +++ b/pkgs/development/python-modules/pygtk/default.nix @@ -3,7 +3,7 @@ buildPythonPackage rec { name = "pygtk-2.24.0"; - + disabled = isPy3k; src = fetchurl { @@ -20,6 +20,8 @@ buildPythonPackage rec { buildPhase = "buildPhase"; + NIX_CFLAGS_COMPILE = stdenv.lib.optionalString stdenv.isDarwin "-ObjC"; + installPhase = "installPhase"; checkPhase = stdenv.lib.optionalString (libglade == null) diff --git a/pkgs/development/r-modules/default.nix b/pkgs/development/r-modules/default.nix index 093bc2f7884..49273e34c7e 100644 --- a/pkgs/development/r-modules/default.nix +++ b/pkgs/development/r-modules/default.nix @@ -240,30 +240,30 @@ let audio = [ pkgs.portaudio ]; BayesSAE = [ pkgs.gsl_1 ]; BayesVarSel = [ pkgs.gsl_1 ]; - BayesXsrc = [ pkgs.readline pkgs.ncurses ]; + BayesXsrc = [ pkgs.readline.dev pkgs.ncurses ]; bigGP = [ pkgs.openmpi ]; BiocCheck = [ pkgs.which ]; Biostrings = [ pkgs.zlib ]; bnpmr = [ pkgs.gsl_1 ]; BNSP = [ pkgs.gsl_1 ]; - cairoDevice = [ pkgs.gtk2 ]; - Cairo = [ pkgs.libtiff pkgs.libjpeg pkgs.cairo ]; + cairoDevice = [ pkgs.gtk2.dev ]; + Cairo = [ pkgs.libtiff pkgs.libjpeg pkgs.cairo.dev pkgs.x11 pkgs.fontconfig.lib ]; Cardinal = [ pkgs.which ]; chebpol = [ pkgs.fftw ]; ChemmineOB = [ pkgs.openbabel pkgs.pkgconfig ]; cit = [ pkgs.gsl_1 ]; curl = [ pkgs.curl.dev ]; - devEMF = [ pkgs.xorg.libXft ]; + devEMF = [ pkgs.xorg.libXft.dev pkgs.x11 ]; diversitree = [ pkgs.gsl_1 pkgs.fftw ]; EMCluster = [ pkgs.liblapack ]; - fftw = [ pkgs.fftw ]; - fftwtools = [ pkgs.fftw ]; + fftw = [ pkgs.fftw.dev ]; + fftwtools = [ pkgs.fftw.dev ]; Formula = [ pkgs.gmp ]; geoCount = [ pkgs.gsl_1 ]; - git2r = [ pkgs.zlib pkgs.openssl ]; + git2r = [ pkgs.zlib.dev pkgs.openssl.dev ]; GLAD = [ pkgs.gsl_1 ]; glpkAPI = [ pkgs.gmp pkgs.glpk ]; - gmp = [ pkgs.gmp ]; + gmp = [ pkgs.gmp.dev ]; graphscan = [ pkgs.gsl_1 ]; gsl = [ pkgs.gsl_1 ]; h5 = [ pkgs.hdf5-cpp pkgs.which ]; @@ -272,13 +272,13 @@ let iBMQ = [ pkgs.gsl_1 ]; igraph = [ pkgs.gmp ]; JavaGD = [ pkgs.jdk ]; - jpeg = [ pkgs.libjpeg ]; + jpeg = [ pkgs.libjpeg.dev ]; KFKSDS = [ pkgs.gsl_1 ]; - kza = [ pkgs.fftw ]; + kza = [ pkgs.fftw.dev ]; libamtrack = [ pkgs.gsl_1 ]; mixcat = [ pkgs.gsl_1 ]; mvabund = [ pkgs.gsl_1 ]; - mwaved = [ pkgs.fftw ]; + mwaved = [ pkgs.fftw.dev ]; ncdf4 = [ pkgs.netcdf ]; nloptr = [ pkgs.nlopt ]; openssl = [ pkgs.openssl.dev ]; @@ -287,99 +287,99 @@ let pbdMPI = [ pkgs.openmpi ]; pbdNCDF4 = [ pkgs.netcdf ]; pbdPROF = [ pkgs.openmpi ]; - PKI = [ pkgs.openssl ]; + PKI = [ pkgs.openssl.dev ]; png = [ pkgs.libpng.dev ]; - PopGenome = [ pkgs.zlib ]; + PopGenome = [ pkgs.zlib.dev ]; proj4 = [ pkgs.proj ]; qtbase = [ pkgs.qt4 ]; qtpaint = [ pkgs.qt4 ]; R2GUESS = [ pkgs.gsl_1 ]; - R2SWF = [ pkgs.zlib pkgs.libpng pkgs.freetype ]; + R2SWF = [ pkgs.zlib pkgs.libpng pkgs.freetype.dev ]; RAppArmor = [ pkgs.libapparmor ]; rapportools = [ pkgs.which ]; rapport = [ pkgs.which ]; - rbamtools = [ pkgs.zlib ]; - rcdd = [ pkgs.gmp ]; - RcppCNPy = [ pkgs.zlib ]; + rbamtools = [ pkgs.zlib.dev ]; + rcdd = [ pkgs.gmp.dev ]; + RcppCNPy = [ pkgs.zlib.dev ]; RcppGSL = [ pkgs.gsl_1 ]; - RcppOctave = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre pkgs.octave ]; + RcppOctave = [ pkgs.zlib pkgs.bzip2.dev pkgs.icu pkgs.lzma.dev pkgs.pcre.dev pkgs.octave ]; RcppZiggurat = [ pkgs.gsl_1 ]; rgdal = [ pkgs.proj pkgs.gdal ]; rgeos = [ pkgs.geos ]; - rggobi = [ pkgs.ggobi pkgs.gtk2 pkgs.libxml2 ]; + rggobi = [ pkgs.ggobi pkgs.gtk2.dev pkgs.libxml2.dev ]; rgl = [ pkgs.mesa pkgs.xlibsWrapper ]; Rglpk = [ pkgs.glpk ]; - RGtk2 = [ pkgs.gtk2 ]; + RGtk2 = [ pkgs.gtk2.dev ]; rhdf5 = [ pkgs.zlib ]; - Rhpc = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.openmpi pkgs.pcre ]; - Rhtslib = [ pkgs.zlib ]; - RJaCGH = [ pkgs.zlib ]; + Rhpc = [ pkgs.zlib pkgs.bzip2.dev pkgs.icu pkgs.lzma.dev pkgs.openmpi pkgs.pcre.dev ]; + Rhtslib = [ pkgs.zlib.dev ]; + RJaCGH = [ pkgs.zlib.dev ]; rjags = [ pkgs.jags ]; - rJava = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre pkgs.jdk pkgs.libzip ]; + rJava = [ pkgs.zlib pkgs.bzip2.dev pkgs.icu pkgs.lzma.dev pkgs.pcre.dev pkgs.jdk pkgs.libzip ]; Rlibeemd = [ pkgs.gsl_1 ]; - rmatio = [ pkgs.zlib ]; - Rmpfr = [ pkgs.gmp pkgs.mpfr ]; + rmatio = [ pkgs.zlib.dev ]; + Rmpfr = [ pkgs.gmp pkgs.mpfr.dev ]; Rmpi = [ pkgs.openmpi ]; RMySQL = [ pkgs.zlib pkgs.mysql.lib ]; RNetCDF = [ pkgs.netcdf pkgs.udunits ]; RODBCext = [ pkgs.libiodbc ]; RODBC = [ pkgs.libiodbc ]; rpg = [ pkgs.postgresql ]; - rphast = [ pkgs.pcre pkgs.zlib pkgs.bzip2 pkgs.gzip pkgs.readline ]; + rphast = [ pkgs.pcre.dev pkgs.zlib pkgs.bzip2 pkgs.gzip pkgs.readline ]; Rpoppler = [ pkgs.poppler ]; RPostgreSQL = [ pkgs.postgresql ]; RProtoBuf = [ pkgs.protobuf ]; rPython = [ pkgs.python ]; - RSclient = [ pkgs.openssl ]; + RSclient = [ pkgs.openssl.dev ]; Rserve = [ pkgs.openssl ]; - Rssa = [ pkgs.fftw ]; - rtfbs = [ pkgs.zlib pkgs.pcre pkgs.bzip2 pkgs.gzip pkgs.readline ]; - rtiff = [ pkgs.libtiff ]; + Rssa = [ pkgs.fftw.dev ]; + rtfbs = [ pkgs.zlib pkgs.pcre.dev pkgs.bzip2 pkgs.gzip pkgs.readline ]; + rtiff = [ pkgs.libtiff.dev ]; runjags = [ pkgs.jags ]; - RVowpalWabbit = [ pkgs.zlib pkgs.boost ]; + RVowpalWabbit = [ pkgs.zlib.dev pkgs.boost ]; rzmq = [ pkgs.zeromq3 ]; SAVE = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre ]; sdcTable = [ pkgs.gmp pkgs.glpk ]; seewave = [ pkgs.fftw.dev pkgs.libsndfile.dev ]; - seqinr = [ pkgs.zlib ]; - seqminer = [ pkgs.zlib pkgs.bzip2 ]; - showtext = [ pkgs.zlib pkgs.libpng pkgs.icu pkgs.freetype ]; + seqinr = [ pkgs.zlib.dev ]; + seqminer = [ pkgs.zlib.dev pkgs.bzip2 ]; + showtext = [ pkgs.zlib pkgs.libpng pkgs.icu pkgs.freetype.dev ]; simplexreg = [ pkgs.gsl_1 ]; SOD = [ pkgs.cudatoolkit ]; # requres CL/cl.h - spate = [ pkgs.fftw ]; + spate = [ pkgs.fftw.dev ]; sprint = [ pkgs.openmpi ]; ssanv = [ pkgs.proj ]; stsm = [ pkgs.gsl_1 ]; stringi = [ pkgs.icu.dev ]; survSNP = [ pkgs.gsl_1 ]; - sysfonts = [ pkgs.zlib pkgs.libpng pkgs.freetype ]; - TAQMNGR = [ pkgs.zlib ]; - tiff = [ pkgs.libtiff ]; + sysfonts = [ pkgs.zlib pkgs.libpng pkgs.freetype.dev ]; + TAQMNGR = [ pkgs.zlib.dev ]; + tiff = [ pkgs.libtiff.dev ]; TKF = [ pkgs.gsl_1 ]; - tkrplot = [ pkgs.xorg.libX11 ]; + tkrplot = [ pkgs.xorg.libX11 pkgs.tk.dev ]; topicmodels = [ pkgs.gsl_1 ]; udunits2 = [ pkgs.udunits pkgs.expat ]; V8 = [ pkgs.v8 ]; VBLPCM = [ pkgs.gsl_1 ]; VBmix = [ pkgs.gsl_1 pkgs.fftw pkgs.qt4 ]; - WhopGenome = [ pkgs.zlib ]; - XBRL = [ pkgs.zlib pkgs.libxml2 ]; - xml2 = [ pkgs.libxml2 ]; + WhopGenome = [ pkgs.zlib.dev ]; + XBRL = [ pkgs.zlib pkgs.libxml2.dev ]; + xml2 = [ pkgs.libxml2.dev ]; XML = [ pkgs.libtool pkgs.libxml2.dev pkgs.xmlsec pkgs.libxslt ]; - affyPLM = [ pkgs.zlib ]; - bamsignals = [ pkgs.zlib ]; - BitSeq = [ pkgs.zlib ]; + affyPLM = [ pkgs.zlib.dev ]; + bamsignals = [ pkgs.zlib.dev ]; + BitSeq = [ pkgs.zlib.dev ]; DiffBind = [ pkgs.zlib ]; ShortRead = [ pkgs.zlib.dev ]; - oligo = [ pkgs.zlib ]; - gmapR = [ pkgs.zlib ]; - Rsubread = [ pkgs.zlib ]; + oligo = [ pkgs.zlib.dev ]; + gmapR = [ pkgs.zlib.dev ]; + Rsubread = [ pkgs.zlib.dev ]; XVector = [ pkgs.zlib.dev ]; Rsamtools = [ pkgs.zlib.dev ]; - rtracklayer = [ pkgs.zlib ]; - affyio = [ pkgs.zlib ]; - VariantAnnotation = [ pkgs.zlib ]; - snpStats = [ pkgs.zlib ]; + rtracklayer = [ pkgs.zlib.dev ]; + affyio = [ pkgs.zlib.dev ]; + VariantAnnotation = [ pkgs.zlib.dev ]; + snpStats = [ pkgs.zlib.dev ]; }; packagesWithBuildInputs = { @@ -1791,6 +1791,10 @@ let ''; }); + Cairo = old.Cairo.overrideDerivation (attrs: { + NIX_LDFLAGS = "-lfontconfig"; + }); + curl = old.curl.overrideDerivation (attrs: { preConfigure = "patchShebangs configure"; }); @@ -1859,6 +1863,7 @@ let devEMF = old.devEMF.overrideDerivation (attrs: { NIX_CFLAGS_LINK = "-L${pkgs.xorg.libXft.out}/lib -lXft"; + NIX_LDFLAGS = "-lX11"; }); slfm = old.slfm.overrideDerivation (attrs: { |